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WGLab / PennCNV

Copy number vaiation detection from SNP arrays
http://penncnv.openbioinformatics.org
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Docker to Singularity root user access #91

Closed joshuamschmidt closed 1 year ago

joshuamschmidt commented 1 year ago

Running Docker container with Singularity results in a 'Permission denied' error: Can't open perl script "/root/PennCNV/cal_gc_snp.pl": Permission denied This is because executables are installed in /root. Can you update the container and install in a non privileged directory?

kaichop commented 1 year ago

sorry it took me a while to address the issue since I cannot find the original image now. So I downloaded the one from dockerhub and made the necessary changes, and pushed it to dockerhub. It is tagged as 'latest' now so you do not need to use 1.0.5 tag to download it. Please try it again and see if it works. I do not have singularity to try it, but the /home/user directory should be readable to all users now.

On Tue, Sep 20, 2022 at 1:08 AM joshua m schmidt @.***> wrote:

Running Docker container with Singularity results in a 'Permission denied' error: Can't open perl script "/root/PennCNV/cal_gc_snp.pl": Permission denied This is because executables are installed in /root. Can you update the container and install in a non privileged directory?

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